Sequence
atgc intronic sequence ATGC exonic sequencegtgcgttttgttttattagcaatcaattattcttttcttttttggtcatgccatatttagttgaatttcagatgattttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G11710.1 (Glycine max), 3'ss of exon 2
------gtgcgttttgttt---tattagcaatcaattattcttttcttttttggtcatgccatatttagttgaatttcagatgat---tttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
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gtgggtgtgcttcccatttatatatatatatacatacatacatacattctttctcaaaactcttctttaatgcttaaaaggttgtccttttatggtttccagAGGAAAGATAACTTTGAATCTGTAGTAATGGAGCATCTGAGAATGAATGGGGCATACTGGGGATTGACCACTCTGGATCTTCTAGGAAAGCTTCATTCTG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G28630.1 (Glycine max), 3'ss of exon 1
gtgcgttttgttttattagcaatcaattattcttttcttttttggtcatgccatatttagttgaatttcagatgattttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
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gtgtgctgtgcttcccatttatacatggatgccttgcaaactc--ttctttaatgcttaaaaggttgtcc-----ttttatggtttccagAGGAAAGATAACTTTGAATCTGTCGTAATGGAGCATCTAAGAATGAATGGGGCATATTGGGGATTGACCACTCTGGATCTTCTAGGAAAGCTTCATACCG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G12210.2 (Arabidopsis thaliana), 3'ss of exon 2
------------------gtgcgttttgttttattagcaatcaattattcttttcttttttgg-tcatgccat---atttagttgaatttcagatgat-tttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG---
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gtacctagaaactgtatagaacctttgctcgttttctctgtttatgtcactgtgattgtatagcttatgttcttcttttcaattgctttttgaattttatttaatttgct-agaagAAAGAGAGTTTTGAGTCTGTGGTGATGGATCATCTAAGAATGAATGGTGCATACTGGGGACTCACCACTCTCGACTTACTTGACAAGCTCGGCTGTGTTT
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G12210.1 (Arabidopsis thaliana), 3'ss of exon 2
------------------gtgcgttttgttttattagcaatcaattattcttttcttttttgg-tcatgcca---tatttagttgaatttcagatgat-tttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
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gtacctagaaactgtatagaacctttgctcgttttctctgtttatgtcactgtgattgtatagcttatgttcttcttttcaattgctttttgaattttatttaatttgct-agAAGAAAGAGAGTTTTGAGTCTGTGGTGATGGATCATCTAAGAATGAATGGTGCATACTGGGGACTCACCACTCTCGACTTACTTGACAAGCTCGGCTGTG
upper sequence: Vv15s0024g00080.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G12070.1 (Arabidopsis thaliana), 3'ss of exon 1
------------------------------------gtgcgttttgttt-tatta--gcaatcaattattcttttcttttttggtcatgccatatttagttgaatttcagatgattttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
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gtactagtatataaagctatatcatccattttcctcatgctcattgtttatgtcactataattaacaacttaaaaatttcccctttctcacttttttaattggttttcatattaacttgct------agAAAAAAGAGAGTTTTGAGTCTGTGGTTATGGATCATCTGAGAATGAATGGTGCATATTGGGGACTAACCACACTGGCTTTACTCGACAAGCTTGGTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttttggtcatgccatatttagttgaatttcagatgattttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
ttttgtt CT-rich tract
atatttagttgaattt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcgttttgttttattagcaatcaattattcttttcttttttggtcatgccatatttagttgaatttcagatgattttgttgtactcagAGGAAGGACAATTTTGAATCAGTGGTGATGGAACATCTAAGAATGAATGGGGCATACTGGGGACTGACTACTCTAGATCTTCTAGGAAAGCTGGACATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA